Structure of PDB 4v5d Chain D0

Receptor sequence

>4v5dD0 (length=84) Species: 300852 (Thermus thermophilus HB8)

AHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNV
GMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA

3D structure

• PDB: 4v5d Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome.
• Chain: D0
• Resolution: 3.5 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	D0	A2 K5 L7 R11	A1 K4 L6 R10
BS02	rna	D0	A2 H3 K4 N12 R14 D15 S16 Q17 A18 K19 R20 K24 Y26 E27 Q29 R32 A33 G34 N35 I36 R39 R41 G42 T43 R44 F45 G54 R55 D56 F57 F60 F69 R77	A1 H2 K3 N11 R13 D14 S15 Q16 A17 K18 R19 K23 Y25 E26 Q28 R31 A32 G33 N34 I35 R38 R40 G41 T42 R43 F44 G53 R54 D55 F56 F59 F68 R76
BS03	rna	D0	R72 G73 R74	R71 G72 R73

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v5d, PDBe:4v5d, PDBj:4v5d
• PDBsum: 4v5d
• PubMed: 19363482
• UniProt: P60493|RL27_THET8 Large ribosomal subunit protein bL27 (Gene Name=rpmA)